Debottlenecking the strictosidine pathway - and improving workflows with teemi

By Søren Petersen

9 October 2024

Pathway

Cytochrome P450s (CYPS)

Strategies for debottlenecking

Main hypothesis

  • Specific combinations of CPR / G8H homologs and corresponding expression levels can remove the G8H bottleneck in the Strictosidine pathway

Experimental setup:

Results

Results

Teemi

Project parts

  1. Design
    • Promoter & homolog selection
  2. Build
    • Background strain
    • Library
  3. Test
    • Library characterization
  4. Learn
    • Plotting and modelling

Project notebooks

Project notebooks

1. Organise samples

2. Simulate experiments

3. Plan reactions

Summary

Benefits of literate programming (as I see them)

  • One system
  • Automate everything repetitive
  • Error reduction
  • Next level documentation
  • Resist knowledge loss

Ultimate goal: more time for biological questions

Thank you for your attention!